SMTL ID : 6iao.1 (1 other biounit)

Structure of Cytochrome P450 BM3 M11 mutant in complex with DTT at resolution 2.16A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 27 residues within 4Å: Chain A: K.104, L.110, L.121, V.122, W.131, F.142, I.188, F.296, A.299, G.300, T.303, T.304, L.307, T.362, A.363, F.366, P.427, F.428, G.429, R.433, A.434, C.435, I.436, G.437, F.440, A.441 Ligands: DTT.2 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:L.121, A:V.122, A:F.142, A:I.188, A:F.296, A:F.296, A:A.299, A:L.307, A:A.363, A:F.428, A:I.436, A:F.440 Hydrogen bonds: A:R.433 Water bridges: A:K.104, A:S.367, A:S.367, A:S.367 Salt bridges: A:K.104, A:K.104, A:R.433 Metal complexes: A:C.435 HEM.13: 26 residues within 4Å: Chain B: K.104, L.110, L.121, V.122, W.131, F.142, F.296, A.299, G.300, T.303, T.304, L.307, T.362, A.363, F.366, P.427, F.428, G.429, R.433, A.434, C.435, I.436, G.437, F.440, A.441 Ligands: DTT.14 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:L.121, B:V.122, B:F.142, B:F.296, B:F.296, B:A.299, B:L.307, B:A.363, B:F.428, B:I.436 Hydrogen bonds: B:R.433 Water bridges: B:K.104, B:K.104, B:S.367, B:S.367, B:S.367 Salt bridges: B:K.104, B:K.104, B:R.433 Metal complexes: B:C.435

3 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.2: 6 residues within 4Å: Chain A: V.122, A.299, V.302, T.303, T.473 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) DTT.3: 8 residues within 4Å: Chain A: R.225, D.230, A.232, C.233, N.236 Chain B: R.225, C.233, N.236 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.225, A:D.230, B:N.236 Water bridges: A:D.230, B:N.221 DTT.14: 6 residues within 4Å: Chain B: V.122, A.299, V.302, T.303, T.473 Ligands: HEM.13 No protein-ligand interaction detected (PLIP)

11 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: K.426, N.430, G.431 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: G.431, Q.432 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: P.177, K.475, E.477, G.478 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: F.314, N.318 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: R.258, T.270 Ligand excluded by PLIP CL.9: 5 residues within 4Å: Chain A: R.225, A.226, N.227 Chain B: A.226, N.227 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain B: E.128, K.129 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain B: G.431, Q.432 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain B: F.314, N.318 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain B: N.318, P.319, Y.320 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain B: P.177, E.477, G.478 Ligand excluded by PLIP

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 4 residues within 4Å: Chain A: R.114, G.118, D.119, Y.291 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.114, A:R.114, A:D.119, A:D.119 GOL.11: 3 residues within 4Å: Chain A: P.231, A.232 Chain B: D.58 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.234 Water bridges: A:D.234, B:D.58 GOL.20: 5 residues within 4Å: Chain B: R.114, G.118, D.119, E.287, Y.291 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.287 Water bridges: B:D.119, B:E.287

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.12: 5 residues within 4Å: Chain A: N.105, W.125, H.127, Y.369, G.385 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.125, A:G.385

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Frydenvang, K. et al., Structural analysis of Cytochrome P450 BM3 mutant M11 in complex with dithiothreitol. Plos One (2019)

Release Date

2019-06-05

Peptides

Bifunctional cytochrome P450/NADPH--P450 reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bifunctional cytochrome P450/NADPH--P450 reductase

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